def test_pathogenicity_all_diff_by_source_drop_source_add_source(self):
prev = ["Pending (ClinVar)"]
new = ["Uncertain_significance,Likely_benign,Pending (BIC)"]
# Test ClinVar change
(classificationAdded, classificationRemoved) = releaseDiff.checkPathogenicityAllDiffBySource("ClinVar", prev, new)
self.assertEqual(classificationAdded, '')
self.assertEqual(classificationRemoved, 'Pending (ClinVar)')
# Test BIC change
(classificationAdded, classificationRemoved) = releaseDiff.checkPathogenicityAllDiffBySource("BIC", prev, new)
self.assertEqual(classificationAdded, 'Uncertain_significance,Likely_benign,Pending (BIC)')
self.assertEqual(classificationRemoved, '')
def test_pathogenicity_all_diff_by_source_drop_source_add_source(self):
prev = ["Pending (ClinVar)"]
new = ["Uncertain_significance,Likely_benign,Pending (BIC)"]
# Test ClinVar change
(classificationAdded, classificationRemoved) = releaseDiff.checkPathogenicityAllDiffBySource("ClinVar", prev, new)
self.assertEqual(classificationAdded, '')
self.assertEqual(classificationRemoved, 'Pending (ClinVar)')
# Test BIC change
(classificationAdded, classificationRemoved) = releaseDiff.checkPathogenicityAllDiffBySource("BIC", prev, new)
self.assertEqual(classificationAdded, 'Uncertain_significance,Likely_benign,Pending (BIC)')
self.assertEqual(classificationRemoved, '')
def test_pathogenicity_all_diff_by_source_same_values_different_order(
self):
prev = "Uncertain_significance,Likely_benign (ClinVar)"
new = "Likely_benign,Uncertain_significance (ClinVar)"
(classificationAdded, classificationRemoved
) = releaseDiff.checkPathogenicityAllDiffBySource(
"ClinVar", prev, new)
self.assertEqual(classificationAdded, '')
self.assertEqual(classificationRemoved, '')
def test_pathogenicity_all_diff_by_source_same_values_different_order(self):
prev = "Uncertain_significance,Likely_benign (ClinVar)"
new = "Likely_benign,Uncertain_significance (ClinVar)"
(classificationAdded, classificationRemoved) = releaseDiff.checkPathogenicityAllDiffBySource("ClinVar", prev, new)
self.assertEqual(classificationAdded, '')
self.assertEqual(classificationRemoved, '')
